Advertisement

Antonie van Leeuwenhoek

, Volume 98, Issue 3, pp 395–401 | Cite as

Yaniella soli sp. nov., a new actinobacterium isolated from non-saline forest soil in China

  • Yi-Guang Chen
  • Jun Chen
  • Qi-Hui Chen
  • Shu-Kun Tang
  • Yu-Qin Zhang
  • Jian-Wu He
  • Wen-Jun Li
  • Yan-Qi LiuEmail author
Original Paper

Abstract

A novel Gram-stain-positive, slightly halophilic, facultatively alkaliphilic, non-motile, non-sporulating, catalase-positive, oxidase-negative, aerobic bacterium, designated strain JSM 070026T, was isolated from non-saline forest soil in China. Growth occurred with 0–20% (w/v) NaCl (optimum, 2–4%) and at pH 6.0–10.5 (optimum, pH 8.0) and 5–40°C (optimum, 30°C). Good growth also occurred in the presence of 0–28% (w/v) KCl (optimum, 2–5%) or 0–25% (w/v) MgCl2·6H2O (optimum, 1–4%). The peptidoglycan type was A4α (l-Lys–Gly–l-Glu). Cell-wall sugars contained mannose and xylose. The major cellular fatty acids were anteiso-C15:0 and iso-C15:0. Strain JSM 070026T contained menaquinone 8 as the major respiratory quinone and diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol as the major polar lipids. The DNA G + C content of strain JSM 070026T was 56.7 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain JSM 070026T was a member of the suborder Micrococcineae and most closely related to Yaniella flava YIM 70178T (sequence similarity 99.4%) and Yaniella halotolerans YIM 70085T (97.9%). The three strains formed a distinct branch in the phylogenetic tree. The combination of phylogenetic analysis, DNA–DNA relatedness values, phenotypic characteristics and chemotaxonomic data supports the proposal that strain JSM 070026T represents a novel species of the genus Yaniella, for which the name Yaniella soli sp. nov. is proposed. The type strain is JSM 070026T (=DSM 22211T = KCTC 13527T).

Keywords

Yaniella soli sp. nov. Halophilic Non-saline soil 

Notes

Acknowledgements

This work was supported by grants from the National Basic Research Program of China (2010CB833800), National Natural Science Foundation of China (NSFC) (30970007), Jishou University (09JDY022) and International Cooperation Research Program of Yunnan Province (2009AC017). We are grateful to Mr Ke Huang for his excellent technical assistance.

Supplementary material

10482_2010_9453_MOESM1_ESM.docx (63 kb)
Supplementary material 1 (DOCX 62 kb)

References

  1. Atlas RM (1993) In: Parks LC (ed) Handbook of microbiological media. CRC Press, Boca Raton, pp 666–672 Google Scholar
  2. Chen YG, Cui XL, Pukall R, Li HM, Yang YL, Xu LH, Wen ML, Peng Q, Jiang CL (2007) Salinicoccus kunmingensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-west China. Int J Syst Evol Microbiol 57:2327–2332CrossRefPubMedGoogle Scholar
  3. Chun J, Lee JH, Jung Y, Kim M, Kim S, Kim BK, Lim YW (2007) EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57:2259–2261CrossRefPubMedGoogle Scholar
  4. Collins MD, Jones D (1980) Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 48:459–470Google Scholar
  5. Cowan ST, Steel KJ (1965) Manual for the identification of medical bacteria. Cambridge University Press, LondonGoogle Scholar
  6. Cui XL, Mao PH, Zeng M, Li WJ, Zhang LP, Xu LH, Jiang CL (2001) Streptomonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 51:357–363PubMedGoogle Scholar
  7. De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142CrossRefPubMedGoogle Scholar
  8. Doetsch RN (1981) Determinative methods of light microscopy. In: Gerhardt P, Murray RGE, Costilow RN, Nester EW, Wood WA, Krieg NR, Phillips GH (eds) Manual of methods for general bacteriology. American Society for Microbiology, Washington, DC, pp 21–33Google Scholar
  9. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376CrossRefPubMedGoogle Scholar
  10. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791CrossRefGoogle Scholar
  11. Felsenstein J (2002) PHYLIP (phylogeny inference package), version 3.6a. Distributed by the auther. Department of Genome Sciences, University of Washington, Seattle, USAGoogle Scholar
  12. Gregersen T (1978) Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5:123–127CrossRefGoogle Scholar
  13. Groth I, Schumann P, Weiss N, Martin K, Rainey FA (1996) Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Bacteriol 46:234–239CrossRefPubMedGoogle Scholar
  14. Hopwood DA, Bibb MJ, Chater KF, Kieser T, Bruton CJ, Kieser HM, Lydiate DJ, Smith CP, Ward JM (1985) Preparation of chromosomal, plasmid and phage DNA. In: Hopwood DA, Bibb MJ, Chater KF, Kieser T, Bruton CJ, Kieser HM, Lydiate DJ, Smith CP, Ward JM, Schrempf H (eds) Genetic manipulation of Streptomyces: a laboratory manual. F. Crowe and Sons, Norwich, pp 79–80Google Scholar
  15. Huß VAR, Festl H, Schleifer KH (1983) Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192Google Scholar
  16. Jahnke KD (1992) BASIC computer program for evaluation of spectroscopic DNA renaturation data from Gilford System 2600 spectrophotometer on a PC/XT/AT type personal computer. J Microbiol Methods 15:61–73CrossRefGoogle Scholar
  17. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120CrossRefPubMedGoogle Scholar
  18. Kluge AG, Farris FS (1969) Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32CrossRefGoogle Scholar
  19. Li WJ, Chen HH, Xu P, Zhang YQ, Schumann P, Tang SK, Xu LH, Jiang CL (2004) Yania halotolerans gen. nov., sp. nov., a novel member of the suborder Micrococcineae from saline soil in China. Int J Syst Evol Microbiol 54:525–531CrossRefPubMedGoogle Scholar
  20. Li WJ, Schumann P, Zhang YQ, Xu P, Chen GZ, Xu LH, Stackebrandt E, Jiang CL (2005) Proposal of Yaniaceae fam. nov. and Yania flava sp. nov. and emended description of the genus Yania. Int J Syst Evol Microbiol 55:1933–1938CrossRefPubMedGoogle Scholar
  21. Li WJ, Zhi XY, Euzéby JP (2008) Proposal of Yaniellaceae fam. nov., Yaniella gen. nov. and Sinobaca gen. nov. as replacements for the illegitimate prokaryotic names Yaniaceae Li et al. 2005, Yania Li et al. 2004, emend Li et al. 2005, and Sinococcus Li et al. 2006, respectively. Int J Syst Evol Microbiol 58:525–527Google Scholar
  22. Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G + C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167CrossRefGoogle Scholar
  23. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241CrossRefGoogle Scholar
  24. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMedGoogle Scholar
  25. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101, MIDI Inc, Newark, DE Google Scholar
  26. Schleifer KH, Kandler O (1972) Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407–477PubMedGoogle Scholar
  27. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340CrossRefGoogle Scholar
  28. Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, DC, pp 607–654Google Scholar
  29. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849CrossRefGoogle Scholar
  30. Stackebrandt E, Rainey FA, Ward-Rainey NL (1997) Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479–491CrossRefGoogle Scholar
  31. Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231PubMedGoogle Scholar
  32. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetic analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599CrossRefPubMedGoogle Scholar
  33. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882CrossRefPubMedGoogle Scholar
  34. Ventosa A, Quesada E, Rodriguez-Valera F, Ruiz-Berraquero F, Ramos-Cormenzana A (1982) Numerical taxonomy of moderately halophilic Gram-negative rods. J Gen Microbiol 128:1959–1968Google Scholar
  35. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE et al (1987) International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464CrossRefGoogle Scholar
  36. Yassin AF, Hupfer H, Siering C, Klenk HP, Schumann P (2010) Auritidibacter ignavus gen. nov., sp. nov., a novel bacterium of the family Micrococcacea isolated from ear swab of a man with otitis externa, transfer of the family Yaniellaceae Li et al. 2008 to the family Micrococcaceae and emended description of the suborder Micrococcineae. Int J Syst Evol Microbiol (in press). doi: 10.1099/ijs.0.019786-0

Copyright information

© Springer Science+Business Media B.V. 2010

Authors and Affiliations

  • Yi-Guang Chen
    • 1
  • Jun Chen
    • 1
  • Qi-Hui Chen
    • 1
  • Shu-Kun Tang
    • 2
  • Yu-Qin Zhang
    • 3
  • Jian-Wu He
    • 1
  • Wen-Jun Li
    • 2
    • 4
  • Yan-Qi Liu
    • 1
    Email author
  1. 1.College of Biology and Environmental Sciences, Department of Financial ManagementJishou UniversityJishouPeople’s Republic of China
  2. 2.The Key Laboratory for Microbial Resources of the Ministry of Education, and Laboratory for Conservation and Utilization of Bio-ResourcesYunnan Institute of Microbiology, Yunnan UniversityKunmingPeople’s Republic of China
  3. 3.Institute of Medicinal BiotechnologyChinese Academy of Medical Sciences and Peking Union Medical CollegeBeijingPeople’s Republic of China
  4. 4.Guangdong Key Laboratory of Marine Materia Medica, South China Sea Institute of OceanologyChinese Academy of SciencesGuangzhouPeople’s Republic of China

Personalised recommendations